Research workbench
The structure of the tetrahydrofolate riboswitch containing a U25C mutation
Analyse The structure of the tetrahydrofolate riboswitch containing a U25C mutation in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3SD3
- Type
- RNA
- Length
- 89 nucleotides
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tetrahydrofolate riboswitch
- Ligands
- IRI, FFO
- Pockets
- 4 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tetrahydrofolate riboswitch | rna | 89 | — | — |
Ligands and binding sites
- IRI · Iridium hexammine ion · ligand · 5 copies · chains A
- FFO · N-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)benzoyl]-L-glutamic acid · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 413 | 0.57 | 0.75 | 25 | IRI |
| 2 | 370 | 0.52 | 0.73 | 19 | IRI |
| 3 | 155 | 0.46 | 0.77 | 20 | empty |
| 4 | 82 | 0.28 | 0.71 | 11 | empty |
Compared structures
- 3SD3 · The structure of the tetrahydrofolate riboswitch containing a U25C mutation · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 3SD3 · PDBe 3SD3
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